Welcome to your [QCPName] Quality Control Analysis Report! We are pleased to present to you a visual QC summary of your dataset. Representing high-dimensional omics data using plots helps us view large amounts of information at once to identifying patterns and trends across your samples and datasets. The "[QCP Name]" package monitors metrics based on the input datasets provided. For any concerns about or suggestions to improve this report, let the team know at GroupHeartBioinformaticsSupport@cshs.org, and we will consider your feedback. We are happy to support your computational needs.
The report is divided into 2 tabs:
The following ID-Free metrics have been extracted from mzML files. Provided thresholds have been applied and outlier analysis has been performed. If no outliers were found, outlier plots will not be plotted.
The total ion current (TIC) is the summed intensity across the entire range of masses being detected in each sample. MS1 and MS2 Total Ion Current Values extracted from spectra within the given mzML files
MS1 TIC is expected to be consistent across QC samples. Any outliers detected are highlighted in yellow. Outliers detected could point to issues with sample pickup or samples being dried out. Please check the specific samples listed below.
3 outliers were found. The following files have been detected as outliers: 20211018_Seroconversion_DBS_Plate1_DR4_centroid.mzML, 20211018_Seroconversion_DBS_Plate6_DR4_centroid.mzML, 20211018_Seroconversion_DBS_Plate8_DR2_centroid.mzML
MS2 TIC is expected to be consistent across QC samples. Any outliers detected are highlighted in yellow. Outliers detected could point to issues with sample pickup or samples being dried out. Please check the specific samples listed below.
3 outliers were found. The following files have been detected as outliers: 20211018_Seroconversion_DBS_Plate1_DR4_centroid.mzML, 20211018_Seroconversion_DBS_Plate6_DR4_centroid.mzML, 20211018_Seroconversion_DBS_Plate8_DR2_centroid.mzML
When a grouping file is provided, CV% for TIC values across samples in each group is calculated. This provides an insignt into how consistent the samples are within each group.
CV% for MS1 TIC was calculated using TIC values from each sample within a provided group. All groups have passed the CV Threshold
CV% for MS2 TIC was calculated using TIC values from each sample within a provided group. All groups have passed the CV Threshold
The number of spectra recorded in each mzML file is extracted. The spectral ratio represents the number of MS2 Spectra over the number of MS1 Spectra found in each file.
The base peak intensity is the recorded intensity of the most intense peak from each spectrum in the mzML file. The Max Base Peak Intensity represents the highest recorded base peak intensity in each mzML file.
Max Base Peak Intensity is expected to be consistent across QC samples. Any outliers detected are highlighted in yellow. Outliers detected could point to issues with sample pickup or samples being dried out. Please check the specific samples listed below.
1 outliers were found. The following files have been detected as outliers: 20211018_Seroconversion_DBS_Plate1_DR3_centroid.mzML
The following metrics have been calculated and derived from the input search results that were provided. Given input thresholds have been applied and if grouping file was provided, groupwise comparison has also been performed.
Number of proteins identified from each sample. Any sample not meeting the threshold could indicate an issue within sample preparation or digestion protocols.
Number of precursors identified from each sample. Any sample not meeting the threshold could indicate an issue within sample preparation or digestion protocols.
Cumulative Frequency % of calculated CV% across all samples